@rasure - i've noticed that sometimes when i unfreeze synths, bypass fx bin for the track is still enabled but i haven't ever had parameters changed. @gswitz - take a check by doing this...
take an audio track of anything.
open prochannel
turn on the compressor
set the makeup gain to -12 or something
freeze the audio track
the resulting audio should have the compression applied to it. if you'll notice the master prochannel button is off but the makeup gain setting should still be -12 and the power to the compressor should still be on. i think sometimes people see the individual module power buttons and overlook the main prochannel power.
so if you unfreeze the track and play back you'll get your original audio... the prochannel will have main power off but compressor power on. the mug should still be -12 or so.
if that's not what's happening on your system, not sure what's going on....